Items where Department/Unit is "Center for Microbial Genetics and Genomics"

Araya-Anchetta, A. and Scoles, G. A. and Giles, J. and Busch, J. D. and Wagner, D. M. (2013) Hybridization in natural sympatric populations of Dermacentor ticks in northwestern North America. Ecology and Evolution, 3 (3). pp. 714-724. ISSN 2045-7758

Baker, Anthony and Pearson, Talima and Price, Erin P. and Dale, Julia and Keim, Paul and Hornstra, Heidie and Greenhill, Andrew and Padilla, Gabriel and Warner, Jeffrey (2011) Molecular phylogeny of Burkholderia pseudomallei from a remote region of Papua New Guinea. PLoS ONE, 6 (3). e18343. ISSN 1932-6203

Birdsell, Dawn N. and Antwerpen, Markus and Keim, Paul and Hanczaruk, Matthias and Foster, Jeffrey T. and Sahl, Jason W. and Wagner, David M. and Grass, Gregor (2013) Draft genome sequences of two Bulgarian Bacillus anthracis strains. Genome Announcements, 1 (2). e00152-13. ISSN 2169-8287

Birdsell, Dawn N. and Pearson, Talima and Price, Erin P. and Hornstra, Heidie M. and Nera, Roxanne D. and Stone, Nathan and Gruendike, Jeffrey and Kaufman, Emily L. and Pettus, Amanda H. and Hurbon, Audriana N. and Buchhagen, Jordan L. and Harms, N. Jane and Chanturia, Gvantsa and Gyuranecz, Miklos and Wagner, David M. and Keim, Paul S (2012) Melt analysis of mismatch amplification mutation assays (melt-MAMA): a functional study of a cost-effective SNP genotyping assay in bacterial models. PLoS ONE, 7 (3). e32866. ISSN 1932-6203

Birdsell, Dawn N. and Vogler, Amy J. and Buchhagen, Jordan and Clare, Ashley and Kaufman, Emily and Naumann, Amber and Driebe, Elizabeth and Wagner, David M. and Keim, Paul S. (2014) TaqMan real-time PCR assays for single-nucleotide polymorphisms which identify Francisella tularensis and its subspecies and subpopulations. PloS One, 9 (9). e10796. ISSN 1932-6203

Busch, Joseph D. and Stone, Nathan E. and Nottingham, Roxanne and Araya-Anchetta, Ana and Lewis, Jillian and Hochhalter, Christian and Giles, John R. and Gruendike, Jeffrey and Freeman, Jeanne and Buckmeier, Greta and Bodine, Deanna and Duhaime, Roberta and Miller, Robert J. and Davey, Ronald B. and Olafson, Pia U. and Scoles, Glen A. and Wagner, David M. (2014) Widespread movement of invasive cattle fever ticks (Rhipicephalus microplus) in southern Texas leads to shared local infestations on cattle and deer. Parasites & Vectors, 7 (188). ISSN 1756-3305

Champion, Mia D. and Zeng, Qiandong and Nix, Eli B. and Nano, Francis E. and Keim, Paul S and Kodira, Chinnappa D. and Borowsky, Mark and Young, Sarah and Koehrsen, Michael and Engels, Reinhard and Pearson, Matthew and Howarth, Clint and Larson, Lisa and White, Jared and Alvarado, Lucia and Forsman, Mats and Bearden, Scott W. and Sjoestedt, Anders and Titball, Richard and Michell, Stephen L. and Birren, Bruce and Galagan, James (2009) Comparative genomic characterization of Francisella tularensis strains belonging to low and high virulence subspecies. PLoS Pathogens, 5 (5). e1000459. ISSN 1553-7366

Dale, Julia and Price, Erin P. and Hornstra, Heidie and Busch, Joseph D. and Mayo, Mark and Godoy, Daniel and Wuthiekanun, Vanaporn and Baker, Anthony and Foster, Jeffrey T. and Wagner, David M. and Tuanyok, Apichai and Warner, Jeffrey and Spratt, Brian G. and Peacock, Sharon J. and Currie, Bart J. and Keim, Paul and Pearson, Talima (2011) Epidemiological tracking and population assignment of the non-clonal bacterium, Burkholderia pseudomallei. PLoS Neglected Tropical Diseases, 5 (12). e1381. ISSN 1935-2727

Engelthaler, David M. and Hicks, Nathan D. and Gillece, John D. and Roe, Chandler C. and Schupp, James M. and Driebe, Elizabeth M. and Gilgado, Felix and Carriconde, Fabian and Trilles, Luciana and Firacative, Carolina and Ngamskulrungroj, Popchai and Castañeda, Elizabeth and Lazera, Marcia dos Santos and Melhem, Marcia S. C. and Pérez-Bercoff, Asa and Huttley, Gavin and Sorrell, Tania C. and Voelz, Kerstin and May, Robin C. and Fisher, Matthew C. and Thompson, George R. and Lockhart, Shawn R. and Keim, Paul and Meyer, Wieland (2014) Cryptococcus gattii in North American Pacific Northwest: whole-population genome analysis provides insights into species evolution and dispersal. mBio, 5 (4). pp. 1-18. ISSN 2150-7511

Engelthaler, David M. and Kelley, Erin and Driebe, Elizabeth M. and Bowers, Jolene and Eberhard, Carl F. and Trujillo, Jesse and Decruyenaere, Frederic and Schupp, James M. and Mossong, Joel and Keim, Paul and Even, Jos (2013) Rapid and robust phylotyping of spa t003, a dominant MRSA clone in Luxembourg and other European countries. BMC Infectious Diseases, 13 (1). p. 339. ISSN 1471-2334

Eppinger, Mark and Pearson, Talima and Koenig, Sara S K and Pearson, Ofori and Hicks, Nathan and Agrawal, Sonia and Sanjar, Fatemeh and Galens, Kevin and Daugherty, Sean and Crabtree, Jonathan and Hendriksen, Rene S and Price, Lance B and Upadhyay, Bishnu P and Shakya, Geeta and Fraser, Claire M and Ravel, Jacques and Keim, Paul S (2014) Genomic epidemiology of the Haitian cholera outbreak: a single introduction followed by rapid, extensive, and continued spread characterized the onset of the epidemic. mBio, 5 (6). e01721-14. ISSN 2150-7511

Flores, Gilberto E. and Caporaso, J. Gregory and Henley, Jessica B. and Rideout, Jai Ram and Domogala, Daniel David and Chase, John and Leff, Jonathan W. and Vazquez-Baeza, Yoshiki and Gonzalez, Antonio and Knight, Rob and Dunn, Robert R. and Fierer, Noah (2014) Temporal variability is a personalized feature of the human microbiome. Genome Biology, 15 (12). p. 531. ISSN 1465-6914

Foster, Jeffrey T. and Okinaka, Richard T. and Svensson, Rita and Shaw, Kathryn and De, Barun K. and Robison, Richard A. and Probert, William S. and Kenefic, Leo J. and Brown, William D. and Keim, Paul (2008) Real-time PCR assays of single-nucleotide polymorphisms defining the major Brucella clades. Journal of Clinical Microbiology, 46 (1). pp. 296-301. ISSN 1098-660X

Foster, Jeffrey T. and Allan, Gerard J. and Chan, Agnes P. and Rabinowicz, Pablo D. and Ravel, Jacques and Jackson, Paul J. and Keim, Paul (2010) Single nucleotide polymorphisms for assessing genetic diversity in castor bean (Ricinus communis). BMC Plant Biology, 10 (13). ISSN 1471-2229

Giles, John R. and Peterson, A. Townsend and Busch, Joseph D. and Olafson, Pia U. and Scoles, Glen A. and Davey, Ronald B. and Pound, J. Mathews and Kammlah, Diane M. and Lohmeyer, Kimberly H. and Wagner, David M. (2014) Invasive potential of cattle fever ticks in the southern United States. Parasites & vectors, 7 (189). ISSN 1756-3305

Gillece, John D. and Schupp, James M. and Balajee, S. Arunmozhi and Harris, Julie and Pearson, Talima and Yan, Yongpan and Keim, Paul and DeBess, Emilio and Marsden-Haug, Nicola and Wohrle, Ron and Engelthaler, David M. and Lockhart, Shawn R. (2011) Whole genome sequence analysis of Cryptococcus gattii from the pacific northwest reveals unexpected diversity. Plos One, 6 (12). pp. 1-7. ISSN 1932-6203

Gyuranecz, M. and Sulyok, K. M. and Balla, E. and Mag, T. and Balazs, A. and Simor, Z. and Denes, B. and Hornok, S. and Bajnoczl, P. and Hornstra, H. M. and Pearson, T. and Keim, P. and Dan, A. (2014) Q fever epidemic in Hungary, April to July 2013. Eurosurveillance, 19 (30). 5 pp.. ISSN 1560-7917

Hall, Carina M. and Busch, Joseph D. and Scoles, Glen A. and Palma-Cagle, Kristina A. and Ueti, Massaro W. and Kappmeyer, Lowell S. and Wagner, David M. (2013) Genetic characterization of Theileria equi infecting horses in North America: evidence for a limited source of U.S. introductions. Parasites & Vectors, 6 (35). pp. 1-12. ISSN 1756-3305

Harbeck, Michaela and Seifert, Lisa and Hänsch, Stephanie and Wagner, David M. and Birdsell, Dawn and Parise, Katy L. and Wiechmann, Ingrid and Grupe, Gisela and Thomas, Astrid and Keim, Paul and Zöller, Lothar and Bramanti, Barbara and Riehm, Julia M. and Scholz, Holger C. (2013) Yersinia pestis DNA from skeletal remains from the 6th century AD reveals insights into Justinianic plague. PLoS Pathogens, 9 (5). e1003349. ISSN 1553-7366

Hendriksen, Rene S. and Price, Lance B. and Schupp, James M. and Gillece, John D. and Kaas, Rolf S. and Engelthaler, David M. and Bortolaia, Valeria and Pearson, Talima Ross and Waters, Andrew E. and Upadhyay, Bishnu Prasad and Shrestha, Sirjana Devi and Adhikari, Shailaja and Shakya, Geeta and Keim, Paul S. and Aarestrup, Frank M. (2011) Population genetics of Vibrio cholerae from Nepal in 2010: Evidence on the origin of the Haitian outbreak. mBio, 2 (4). e00157-11. ISSN 2150-7511

Hornstra, Heidie M. and Priestley, Rachael A. and Georgia, Shalamar M. and Kachur, Sergey and Birdsell, Dawn N. and Hilsabeck, Remy and Gates, Lauren T. and Samuel, James E. and Heinzen, Robert A. and Kersh, Gilbert J. and Keim, Paul and Massung, Robert F. and Pearson, Talima (2011) Rapid typing of Coxiella burnetii. PLoS ONE, 6 (11). e26201. ISSN 1932-6203

Kaestli, Mirjam and Richardson, Leisha J. and Colman, Rebecca E. and Tuanyok, Apichai and Price, Erin P. and Bowers, Jolene R. and Mayo, Mark and Kelley, Erin and Seymour, Meagan L. and Sarovich, Derek S. and Pearson, Talima and Engelthaler, David M. and Wagner, David M. and Keim, Paul S. and Schupp, James M. and Currie, Bart J. (2012) Comparison of TaqMan PCR assays for detection of the melioidosis agent Burkholderia pseudomallei in clinical specimens. Journal of Clinical Microbiology, 50 (6). pp. 2059-2062. ISSN 1098-660X

Kenefic, Leo J. and Pearson, Talima and Okinaka, Richard T. and Schupp, James M. and Wagner, David M. and Hoffmaster, Alex R. and Trim, Carla P. and Chung, Wai-Kwan and Beaudry, Jodi A. and Jiang, L. and Gajer, P. and Foster, Jeffrey T. and Mead, James I. and Ravel, Jacques and Keim, Paul (2009) Pre-columbian origins for North American anthrax. PLos One, 4 (March). e4813. ISSN 1932-6203

Khmaladze, Ekaterine and Birdsell, Dawn N. and Naumann, Amber A. and Hochhalter, Christian B. and Seymour, Meagan L. and Nottingham, Roxanne and Beckstrom-Sternberg, Stephen M. and Beckstrom-Sternberg, James and Nikolich, Mikeljon P. and Chanturia, Gvantsa and Zhgenti, Ekaterine and Zakalashvili, Mariam and Malania, Lile and Babuadze, Giorgi and Tsertsvadze, Nikoloz and Abazashvili, Natalia and Kekelidze, Merab and Tsanava, Shota and Imnadze, Paata and Ganz, Holly H. and Getz, Wayne M. and Pearson, Ofori and Gajer, Pawel and Eppinger, Mark and Ravel, Jacques and Wagner, David M. and Okinaka, Richard T. and Schupp, James M. and Keim, Paul and Pearson, Talima (2014) Phylogeography of Bacillus anthracis in the country of Georgia shows evidence of population structuring and is dissimilar to other regional genotypes. PLoS ONE, 9 (7). e102651. ISSN 1932-6203

Liguori, Andrew P. and Warrington, Stephanie D. and Ginther, Jennifer L. and Pearson, Talima and Bowers, Jolene and Glass, Mindy B. and Mayo, Mark and Wuthiekanun, Vanaporn and Engelthaler, David and Peacock, Sharon J. and Currie, Bart J. and Wagner, David M. and Keim, Paul S and Tuanyok, Apichai (2011) Diversity of 16S-23S rDNA internal transcribed spacer (ITS) reveals phylogenetic relationships in Burkholderia pseudomallei and its near-neighbors. PLoS ONE, 6 (12). e29323. ISSN 1932-6203

Limmathurotsakul, Direk and Dance, David A. B. and Wuthiekanun, Vanaporn and Kaestli, Mirjam and Mayo, Mark and Warner, Jeffrey and Wagner, David M. and Tuanyok, Apichai and Wertheim, Heiman and Cheng, Tan Yoke and Mukhopadhyay, Chiranjay and Puthucheary, Savithiri and Day, Nicholas P. J. and Steinmetz, Ivo and Currie, Bart J. and Peacock, Sharon J. (2013) Systematic review and consensus guidelines for environmental sampling of Burkholderia pseudomallei. PLoS Neglected Tropical Diseases, 7 (3). e2105. ISSN 1935-2727

Litvintseva, Anastasia P. and Hurst, Steven and Gade, Lalitha and Frace, Michael A. and Hilsabeck, Remy and Schupp, James M. and Gillece, John D. and Roe, Chandler and Smith, David and Keim, Paul and Lockhart, Shawn R. and Changayil, Shankar and Weil, M. Ryan and MacCannell, Duncan R. and Brandt, Mary E. and Engelthaler, David M. (2014) Whole-genome analysis of Exserohilum rostratum from an outbreak of fungal meningitis and other infections. Journal of Clinical Microbiology, 52 (9). pp. 3216-3222. ISSN 1098-660X

Liu, Cindy M. and Osborne, Brendan J. W. and Hungate, Bruce A. and Shahabi, Kamnoosh and Huibner, Sanja and Lester, Richard and Dwan, Michael G. and Kovacs, Colin and Contente-Cuomo, Tania L. and Benko, Erika and Aziz, Maliha and Price, Lance B. and Kaul, Rupert (2014) The semen microbiome and its relationship with local immunology and viral load in HIV infection. PLoS Pathogens, 10 (7). e1004262. ISSN 1553-7366

Liu, Cindy M. and Hungate, Bruce A and Tobian, Aaron A. R. and Serwadda, David and Ravel, Jacques and Lester, Richard and Kigozi, Godfrey and Aziz, Maliha and Galiwango, Ronald M. and Nalugoda, Fred and Contente-Cuomo, Tania L. and Wawer, Maria J. and Keim, Paul and Gray, Ronald H. and Price, Lance B. (2013) Male circumcision significantly reduces prevalence and load of genital anaerobic bacteria. mBio, 4 (2). e00076-13. ISSN 2150-7511

Losada, Liliana and Ronning, Catherine M. and DeShazer, David and Woods, Donald and Fedorova, Natalie and Kim, H. Stanley and Shabalina, Svetlana A. and Pearson, Talima R. and Brinkac, Lauren and Tan, Patrick and Nandi, Tannistha and Crabtree, Jonathan and Badger, Jonathan and Beckstrom-Sternberg, Stephen M. and Saqib, Muhammad and Schutzer, Steven E. and Keim, Paul and Nierman, William C. (2010) Continuing evolution of Burkholderia mallei through genome reduction and large-scale rearrangements. Genome Biology and Evolution, 2. pp. 102-116. ISSN 1759-6653

Maho, Angaya and Rossano, Alexandra and Haechler, Herbert and Holzer, Anita and Schelling, Esther and Zinsstag, Jakob and Hassane, Mahamat H and Toguebaye, Bhen S and Akakpo, Ayayi J and Van Ert, Matthew and Keim, Paul S and Kenefic, Leo and Frey, Joachim and Perreten, Vincent (2006) Antibiotic susceptibility and molecular diversity of Bacillus anthracis strains in Chad: Detection of a new phylogenetic subgroup. Journal of Clinical Microbiology, 44 (9). pp. 3422-3425. ISSN 1098-660X

McRobb, Evan and Sarovich, Derek S. and Price, Erin P. and Kaestli, Mirjam and Mayo, Mark and Keim, Paul and Currie, Bart J. (2015) Tracing melioidosis back to the source: using whole-genome sequencing to investigate an outbreak originating from a contaminated domestic water supply. Journal of Clinical Microbiology, 53 (4). pp. 1144-1148. ISSN 1098-660X

Nandi, Tannistha and Ong, Catherine and Pratap Singh, Arvind and Boddey, Justin and Atkins, Timothy and Sarkar-Tyson, Mitali and Essex-Lopresti, Angela E. and Hui Hoon Chua, Angela E. and Pearson, Talima and Kreisberg, Jason F. and Nilsson, Christina and Ariyaratne, Pramila and Ronning, Catherine and Losada, Liliana and Yijun Ruan, Liliana and Wing-Kin Sung, Liliana and Woods, Donald and Titball, Richard W. and Beacham, Ifor and Peak, Ian and Keim, Paul and Nierman, William C. and Tan, Patrick (2010) A genomic survey of positive selection in Burkholderia pseudomallei provides insights into the evolution of accidental virulence. PLoS Pathogens, 6 (4). e1000845. ISSN 1553-7366

Okinaka, Richard T and Price, Erin P. and Wolken, Spenser R. and Gruendike, Jeffrey M. and Chung, Wai K. and Pearson, Talima and Xie, Gary and Munk, Chris and Hill, Karen K. and Challacombe, Jean and Ivins, Bruce E. and Schupp, James M. and Beckstrom-Sternberg, Stephen M. and Friedlander, Arthur and Keim, Paul (2011) An attenuated strain of Bacillus anthracis (CDC 684) has a large chromosomal inversion and altered growth kinetics. BMC Genomics, 12 (1). p. 477. ISSN 1471-2164

Okinaka, Richard T. and Challacombe, Jean and Drees, Kevin and Birdsell, Dawn N. and Janke, Nicolette and Naumann, Amber and Seymour, Meagan and Hornstra, Heidie and Schupp, James and Sahl, Jason and Foster, Jeffrey T. and Pearson, Talima and Turnbull, Peter and Keim, Paul (2014) Genome sequence of Bacillus anthracis STI, a sterne-like Georgian/Soviet vaccine strain. Genome Announcements, 2 (5). e00853-14. ISSN 2169-8287

Orata, Fabini D. and Keim, Paul S. and Boucher, Yan (2014) The 2010 cholera outbreak in Haiti: How science solved a controversy. PLoS Pathogens, 10 (4). e1003967. ISSN 1553-7366

Price, Erin P. and Dale, Julia L. and Cook, James M. and Sarovich, Derek S. and Seymour, Meagan L. and Ginther, Jennifer L. and Kaufman, Emily L. and Beckstrom-Sternberg, Stephen M. and Mayo, Mark and Kaestli, Mirjam and Glass, Mindy B. and Gee, Jay E. and Wuthiekanun, Vanaporn and Warner, Jeffrey M. and Baker, Anthony and Foster, Jeffrey T. and Tan, Patrick and Tuanyok, Apichai and Limmathurotsakul, Direk and Peacock, Sharon J. and Currie, Bart J. and Wagner, David M. and Keim, Paul and Pearson, Talima (2012) Development and validation of Burkholderia pseudomallei-specific real-time PCR assays for clinical, environmental or forensic detection Applications. PLoS ONE, 7 (5). e37723. ISSN 1932-6203

Price, Erin P. and Hornstra, Heidie M. and Limmathurotsakul, Direk and Max, Tamara L. and Sarovich, Derek S. and Vogler, Amy J. and Dale, Julia L. and Ginther, Jennifer L. and Leadem, Benjamin and Colman, Rebecca E. and Foster, Jeffrey T. and Tuanyok, Apichai and Wagner, David M. and Peacock, Sharon J. and Pearson, Talima and Keim, Paul (2010) Within-host evolution of Burkholderia pseudomallei in four cases of acute melioidosis. PLoS Pathogens, 6 (1). e1000725. ISSN 1553-7366

Price, Erin P. and Sarovich, Derek S. and Viberg, Linda and Mayo, Mark and Kaestli, Mirjam and Tuanyok, Apichai and Foster, Jeffrey T. and Keim, Paul and Pearson, Talima and Currie, Bart J. (2015) Whole-genome sequencing of Burkholderia pseudomallei isolates from an unusual melioidosis case identifies a polyclonal infection with the same multilocus sequence type. Journal of Clinical Microbiology, 53 (1). pp. 282-286. ISSN 1098-660X

Price, Erin P. and Sarovich, Derek S. and Webb, Jessica R. and Ginther, Jennifer L. and Mayo, Mark and Cook, James M. and Seymour, Meagan L. and Kaestli, Mirjam and Theobald, Vanessa and Hall, Carina M. and Busch, Joseph D. and Foster, Jeffrey T. and Keim, Paul and Wagner, David M. and Tuanyok, Apichai and Pearson, Talima R. and Currie, Bart J. (2013) Accurate and rapid identification of the Burkholderia pseudomallei near-neighbour, Burkholderia ubonensis, using real-time PCR. PLoS ONE, 8 (8). e71647. ISSN 1932-6203

Price, Lance B. and Johnson, James R. and Aziz, Maliha and Clabots, Connie and Johnston, Brian and Tchesnokova, Veronika and Nordstrom, Lora and Billig, Maria and Chattopadhyay, Sujay and Stegger, Marc and Andersen, Paal S. and Pearson, Talima and Riddell, Kim and Rogers, Peggy and Scholes, Delia and Kahl, Barbara and Keim, Paul and Sokurenko, Evgeni V. (2013) The epidemic of extended-spectrum-beta-lactamase-producing Escherichia coli ST131 is driven by a single highly pathogenic subclone, H30-Rx. mBio, 4 (6). 00377-13. ISSN 2150-7511

Price, Lance B. and Stegger, Marc and Hasman, Henrik and Aziz, Maliha and Larsen, Jesper and Andersen, Paal Skytt and Pearson, Talima and Waters, Andrew E. and Foster, Jeffrey T. and Schupp, James and Gillece, John and Driebe, Elizabeth and Liu, Cindy M. and Springer, Burkhard and Zdovc, Irena and Battisti, Antonio and Franco, Alessia and Żmudzki, Jacek and Schwarz, Stefan and Butaye, Patrick and Jouy, Eric and Pomba, Constanca and Porrero, M. Concepción and Ruimy, Raymond and Smith, Tara C. and Robinson, D. Ashley and Weese, J. Scott and Arriola, Carmen Sofia and Yu, Fangyou and Laurent, Frederic and Keim, Paul and Skov, Robert and Aarestrup, Frank M. (2012) Staphylococcus aureus CC398: Host adaptation and emergence of methicillin resistance in livestock. mBio, 3 (1). e00305-11. ISSN 2150-7511

Rawat, Arun and Engelthaler, David M. and Driebe, Elizabeth M. and Keim, Paul and Foster, Jeffrey T. (2014) MetaGeniE: Characterizing human clinical samples using deep metagenomic sequencing. PLoS ONE, 9 (11). e11091. ISSN 1932-6203

Rideout, Jai Ram and He, Yan and Navas-Molina, Jose A. and Walters, William A. and Ursell, Luke K. and Gibbons, Sean M. and Chase, John and McDonald, Daniel and Gonzalez, Antonio and Robbins-Pianka, Adam and Clemente, Jose C. and Gilbert, Jack A. and Huse, Susan M. and Zhou, Hong-Wei and Knight, Rob and Caporaso, J. Gregory (2014) Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences. PeerJ, 2 (e545). ISSN 2167-8359

Rivarola, Maximo and Foster, Jeffrey T. and Chan, Agnes P. and Williams, Amber L. and Rice, Danny W. and Liu, Xinyue and Melake-Berhan, Admasu and Huot Creasy, Heather and Puiu, Daniela and Rosovitz, M. J. and Khouri, Hoda M. and Beckstrom-Sternberg, Stephen M. and Allan, Gerard J. and Keim, Paul and Ravel, Jacques and Rabinowicz, Pablo D. (2011) Castor bean organelle genome sequencing and worldwide genetic diversity analysis. PLoS ONE, 6 (7). e21743. ISSN 1932-6203

Sahl, Jason W. and Caporaso, J. Gregory and Rasko, David A. and Keim, Paul (2014) The large-scale blast score ratio (LS-BSR) pipeline: a method to rapidly compare genetic content between bacterial genomes. PeerJ, 2 (e332). ISSN 2167-8359

Sahl, Jason W. and Gillece, John D. and Schupp, James M. and Waddell, Victor G. and Driebe, Elizabeth M. and Engelthaler, David M. and Keim, Paul (2013) Evolution of a pathogen: a comparative genomics analysis identifies a genetic pathway to pathogenesis in acinetobacter. PLoS ONE, 8 (1). e54287. ISSN 1932-6203

Sahl, Jason W. and Morris, Carolyn R. and Emberger, Jennifer and Fraser, Claire M. and Ochieng, John Benjamin and Juma, Jane and Fields, Barry and Breiman, Robert F. and Gilmour, Matthew and Nataro, James P. and Rasko, David A. (2015) Defining the phylogenomics of Shigella species: A pathway to diagnostics. Journal of Clinical Microbiology, 53 (3). pp. 951-960. ISSN 1098-660X

Sahl, Jason W. and Stone, Joshua K. and Gelhaus, H. Carl and Warren, Richard L. and Cruttwell, Caroline J. and Funnell, Simon G. and Keim, Paul and Tuanyok, Apichai (2013) Genome sequence of Burkholderia pseudomallei NCTC 13392. Genome Announcements, 1 (3). e00183. ISSN 2169-8287

Sarovich, Derek S. and Price, Erin P. and Schulze, Alex T. Von and Cook, James M. and Mayo, Mark and Watson, Lindsey M. and Richardson, Leisha and Seymour, Meagan L. and Tuanyok, Apichai and Engelthaler, David M. and Pearson, Talima and Peacock, Sharon J. and Currie, Bart J. and Keim, Paul and Wagner, David M. (2012) Characterization of ceftazidime resistance mechanisms in clinical isolates of Burkholderia pseudomallei from Australia. PLoS ONE, 7 (2). e30789. ISSN 1932-6203

Scholz, Holger C. and Pearson, Talima and Hornstra, Heidie and Projahn, Michaela and Terzioglu, Rahime and Wernery, Renate and Georgi, Enrico and Riehm, Julia M. and Wagner, David M. and Keim, Paul S. and Joseph, Marina and Johnson, Bobby and Kinne, Joerg and Jose, Shanti and Hepp, Crystal M. and Witte, Angela and Wernery, Ulrich (2014) Genotyping of burkholderia mallei from an outbreak of glanders in bahrain suggests multiple introduction events. PLoS Neglected Tropical Diseases, 8 (9). e3195. ISSN 1935-2727

Schwarzberg, Karen and Le, Rosalin and Bharti, Balambal and Lindsay, Suzanne and Casaburi, Giorgio and Salvatore, Francesco and Saber, Mohamed H. and Alonaizan, Faisal and Slots, Jørgen and Gottlieb, Roberta A. and Caporaso, J. Gregory and Kelley, Scott T. (2014) The personal human oral microbiome obscures the effects of treatment on periodontal disease. PLoS ONE, 9 (1). e86708. ISSN 1932-6203

Shuey, Megan M. and Drees, Kevin P. and Lindner, Daniel L. and Keim, Paul S and Foster, Jeffrey T. (2014) Highly sensitive quantitative PCR for the detection and differentiation of Pseudogymnoascus destructans and other Pseudogymnoascus species. Applied & Environmental Microbiology, 80 (5). pp. 1726-1731. ISSN 1098-5336

Tiller, Rebekah V. and De, Barun K. and Boshra, Marie and Huynh, Lynn Y. and Ert, Matthew N. Van and Wagner, David M. and Klena, John and Mohsen, T. S. and El-Shafie, S. S. and Keim, Paul and Hoffmaster, Alex R. and Wilkins, Patricia P. and Pimentel, Guillermo (2009) Comparison of two multiple-locus variable-number tandem-repeat analysis methods for molecular strain typing of human Brucella melitensis isolates from the Middle East. Journal of Clinical Microbiology, 47 (7). pp. 2226-2231. ISSN 1098-660X

Touchman, Jeffrey W. and Wagner, David M. and Hao, Jicheng and Mastrian, Stephen D. and Shah, Maulik K. and Vogler, Amy J. and Allender, Christopher J. and Clark, Erin A. and Benitez, Debbie S. and Youngkin, David J. and Girard, Jessica M. and Auerbach, Raymond K. and Beckstrom-Sternberg, Stephen M. and Keim, Paul (2007) A North American Yersinia pestis draft genome sequence: SNPs and phylogenetic analysis. PLoS ONE, 2 (2). e220. ISSN 1932-6203

Trunck, Lily A. and Propst, Katie L. and Wuthiekanun, Vanaporn and Tuanyok, Apichai and Beckstrom-Sternberg, Stephen M and Beckstrom-Sternberg, James S. and Peacock, Sharon J. and Keim, Paul and Dow, Steven W. and Schweizer, Herbert P. (2009) Molecular basis of rare aminoglycoside susceptibility and pathogenesis of Burkholderia pseudomallei clinical isolates from Thailand. PLoS Neglected Tropical Diseases, 3 (9). e0000519. ISSN 1935-2727

Tuanyok, Apichai and Leadem, Benjamin R. and Auerbach, Raymond K. and Beckstrom-Sternberg, Stephen M and Beckstrom-Sternberg, James S. and Mayo, Mark and Wuthiekanun, Vanaporn and Brettin, Thomas S. and Nierman, William C. and Peacock, Sharon J. and Currie, Bart J. and Wagner, David M and Keim, Paul (2008) Genomic islands from five strains of Burkholderia pseudomallei. BMC Genomics, 9 (1). p. 566. ISSN 1471-2164

U'ren, Jana M. and Hornstra, Heidie and Pearson, Talima and Schupp, James M. and Leadem, Benjamin and Georgia, Shalamar and Sermswan, Rasana W. and Keim, Paul (2007) Fine-scale genetic diversity among Burkholderia pseudomallei soil isolates in northeast Thailand. Applied & Environmental Microbiology, 73 (20). pp. 6678-6681. ISSN 1098-5336

Van Zandt, Kristopher E. and Tuanyok, Apichai and Keim, Paul S. and Warren, Richard L. and Gelhaus, H. Carl (2012) An objective approach for Burkholderia pseudomallei strain selection as challenge material for medical countermeasures efficacy testing. Frontiers in Cellular and Infection Microbiology, 2. 9 pp.. ISSN 2235-2988

Vodkin, Lila O. and Khanna, Anupama and Shealy, Robin and Clough, Steven J. and Gonzalez, Delkin Orlando and Philip, Reena and Zabala, Gracia and Thibaud-Nissen, Françoise and Sidarous, Mark and Strömvik, Martina V. and Shoop, Elizabeth and Schmidt, Christina and Retzel, Ernest and Erpelding, John and Shoemaker, Randy C. and Rodriguez-Huete, Alicia M. and Polacco, Joseph C. and Coryell, Virginia and Keim, Paul S and Gong, George and Liu, Lei and Pardinas, Jose and Schweitzer, Peter (2004) Microarrays for global expression constructed with a low redundancy set of 27,500 sequenced cDNAs representing an array of developmental stages and physiological conditions of the soybean plant. BMC genomics, 5. p. 73. ISSN 1471-2164

Vogler, Amy J. and Chan, Fabien and Nottingham, Roxanne and Andersen, Genevieve and Drees, Kevin and Beckstrom-Sternberg, Stephen M and Wagner, David M. and Chanteau, Suzanne and Keim, Paul (2013) A decade of plague in Mahajanga, Madagascar: insights into the global maritime spread of pandemic plague. mBio, 4 (1). e00623-12. ISSN 2150-7511

Vogler, Amy J. and Chan, Fabien and Wagner, David M. and Roumagnac, Philippe and Lee, Judy and Nera, Roxanne and Eppinger, Mark and Ravel, Jacques and Rahalison, Lila and Rasoamanana, Bruno W. and Beckstrom-Sternberg, Stephen M. and Achtman, Mark and Chanteau, Suzanne and Keim, Paul (2011) Phylogeography and molecular epidemiology of Yersinia pestis in Madagascar. PLoS Neglected Tropical Diseases, 5 (9). e1319. ISSN 1935-2727

Wahab, Tara and Birdsell, Dawn N. and Hjertqvist, Marika and Mitchell, Cedar L. and Wagner, David M. and Keim, Paul S. and Hedenström, Ingela and Löfdahl, Sven (2014) Insights to genetic characterization tools for epidemiological tracking of Francisella tularensis in Sweden. PLoS ONE, 9 (11). e112167. ISSN 1932-6203

Welch, Timothy J. and Fricke, W. Florian and McDermott, Patrick F. and White, David G. and Rosso, Marie-Laure and Rasko, David A. and Mammel, Mark K. and Eppinger, Mark and Rosovitz, M. J. and Wagner, David and Rahalison, Lila and LeClerc, J. Eugene and Hinshaw, Jeffrey M. and Lindler, Luther E. and Cebula, Thomas A. and Carniel, Elisabeth and Ravel, Jacques (2007) Multiple antimicrobial resistance in plague: An emerging public health risk. PLoS One, 2 (3). e309. ISSN 1932-6203

Yang, Ruifu and Keim, Paul (2012) Microbial forensics: A powerful tool for pursuing bioterrorism perpetrators and the need for an international database. Journal of Bioterrorism and Biodefense, 2 (S3). ISSN 2157-2526

Yin, Tongming and DiFazio, Stephen P. and Gunter, Lee E. and Zhang, Xinye and Sewell, Michell M. and Woolbright, Scott A. and Allan, Gery J. and Kelleher, Collin T. and Douglas, Carl J. and Wang, Mingxiu and Tuskan, Gerald A. (2008) Genome structure and emerging evidence of an incipient sex chromosome in Populus. Genome Research, 18 (3). pp. 422-430. ISSN 1549-5469